SMTL ID : 3sm1.1

The crystal structure of XMRV protease complexed with pepstatin A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x IVA- VAL- VAL- STA- ALA: Pepstatin A(Non-covalent)

IVA-VAL-VAL-STA-ALA.1: 14 residues within 4Å: Chain A: D.39, A.64, C.95, P.96 Chain B: G.41, A.42, Q.43, W.60, V.61, Q.62, G.63, A.64, L.90, L.99 15 PLIP interactions: 13 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:A.42, B:V.61, B:A.64, B:L.90, B:L.99, A:A.64, A:P.96 Hydrogen bonds: B:G.41, B:Q.43, B:Q.43, B:Q.62, B:Q.62, B:A.64 Water bridges: B:W.60, B:R.102 IVA-VAL-VAL-STA-ALA.2: 17 residues within 4Å: Chain A: G.41, A.42, Q.43, H.44, A.59, W.60, V.61, Q.62, G.63, A.64, W.72, L.90, L.99 Chain B: L.37, D.39, A.64, L.99 16 PLIP interactions: 14 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:A.42, A:A.59, A:V.61, A:W.72, A:L.90, A:L.99, B:L.37, B:L.99 Hydrogen bonds: A:G.41, A:Q.43, A:Q.43, A:Q.62, A:Q.62, A:A.64 Water bridges: A:W.60, A:R.102

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 3 residues within 4Å: Chain B: H.44, H.87, S.88 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.87, B:S.88 FMT.4: 4 residues within 4Å: Chain B: L.47, T.48, Q.49, P.98 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.48, B:Q.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, M. et al., Structural and biochemical characterization of the inhibitor complexes of xenotropic murine leukemia virus-related virus protease. Febs J. (2011)

Release Date

2011-10-12

Peptides

gag-pro-pol polyprotein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

gag-pro-pol polyprotein

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